PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.3NG036700.2.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family MIKC_MADS
Protein Properties Length: 288aa    MW: 32336.2 Da    PI: 9.6984
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3NG036700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.51.3e-3163113151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                          krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Pavir.3NG036700.2.p  63 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 113
                          79***********************************************95 PP
2K-box97.22.5e-321302283100
                K-box   3 kssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 
                          +ss  s ++e + ++++qe+a+L+++i nLq+++R l+G++++++s+k+L+qLe +L+k+l kiR++Kne+l +++e++q++e elq++n
  Pavir.3NG036700.2.p 130 NSSAAStVAEVTIQHYKQESARLRQQITNLQNSNRTLVGDSISTMSHKDLKQLEARLDKGLVKIRARKNEVLSSELEYMQRREMELQNDN 219
                          455555699999****************************************************************************** PP

                K-box  92 kaLrkklee 100
                           +Lr++++e
  Pavir.3NG036700.2.p 220 LYLRSRVDE 228
                          ****99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.7E-4055114IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.22155115IPR002100Transcription factor, MADS-box
CDDcd002651.04E-4456129No hitNo description
SuperFamilySSF554553.14E-3356129IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-335777IPR002100Transcription factor, MADS-box
PROSITE patternPS00350057111IPR002100Transcription factor, MADS-box
PfamPF003191.2E-2664111IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-337792IPR002100Transcription factor, MADS-box
PRINTSPR004049.2E-3392113IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.261142232IPR002487Transcription factor, K-box
PfamPF014861.7E-24142226IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 288 aa     Download sequence    Send to blast
MHIQEVQPST DIMWGFSGQS TLTSTTGPKL KEPAVSSPGS GSVGAAAAAA AAEKNGRGKI  60
EIKRIENTTN RQVTFCKRRN GLLKKAYELS VLCDAEVALI VFSSRGRLYE YSNNSVKATI  120
ERYKKATSDN SSAASTVAEV TIQHYKQESA RLRQQITNLQ NSNRTLVGDS ISTMSHKDLK  180
QLEARLDKGL VKIRARKNEV LSSELEYMQR REMELQNDNL YLRSRVDENE RAQQTANMMG  240
ESSTSEYQQG FIPYDPIRSF LQFNITQQQP QFYSQQEDRK DFNLGGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A8e-2156143289MEF2 CHIMERA
6bz1_B8e-2156143289MEF2 CHIMERA
6bz1_C8e-2156143289MEF2 CHIMERA
6bz1_D8e-2156143289MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.420350.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in lodicules, stamens, carpels and ovules during their development. {ECO:0000269|PubMed:16326928}.
UniprotTISSUE SPECIFICITY: Expressed in the lodicule, stamen carpel and ovule primordia.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. Acts as a C-class protein in association with MADS3. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3), floral meristem determinacy and regulation of the carpel morphogenesis (whorl 4). Plays a more predominant role in floral meristem determinacy than MADS3. {ECO:0000269|PubMed:16326928}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3NG036700.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankMZEZAG1A0.0L18924.1 Corn ZAG1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807784.10.0MADS-box transcription factor 3-like
SwissprotQ2V0P11e-129MAD58_ORYSJ; MADS-box transcription factor 58
TrEMBLA0A3L6RE120.0A0A3L6RE12_PANMI; MADS-box transcription factor 58
STRINGPavir.J04815.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.14e-93MIKC_MADS family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  4. Sato H,Yoshida K,Mitsuda N,Ohme-Takagi M,Takamizo T
    Male-sterile and cleistogamous phenotypes in tall fescue induced by chimeric repressors of SUPERWOMAN1 and OsMADS58.
    Plant Sci., 2012. 183: p. 183-9
    [PMID:22195592]
  5. Yun D, et al.
    OsMADS16 genetically interacts with OsMADS3 and OsMADS58 in specifying floral patterning in rice.
    Mol Plant, 2013. 6(3): p. 743-56
    [PMID:23300256]
  6. Yan D, et al.
    Curved chimeric palea 1 encoding an EMF1-like protein maintains epigenetic repression of OsMADS58 in rice palea development.
    Plant J., 2015. 82(1): p. 12-24
    [PMID:25647350]
  7. Zheng M, et al.
    DEFORMED FLORAL ORGAN1 (DFO1) regulates floral organ identity by epigenetically repressing the expression of OsMADS58 in rice (Oryza sativa).
    New Phytol., 2015. 206(4): p. 1476-90
    [PMID:25675970]
  8. Chen R, et al.
    A Gene Expression Profiling of Early Rice Stamen Development that Reveals Inhibition of Photosynthetic Genes by OsMADS58.
    Mol Plant, 2015. 8(7): p. 1069-89
    [PMID:25684654]
  9. Hu Y, et al.
    Interactions of OsMADS1 with Floral Homeotic Genes in Rice Flower Development.
    Mol Plant, 2015. 8(9): p. 1366-84
    [PMID:25917758]